[gentoo-commits] repo/gentoo:master commit in: sci-biology/biojava/

[James Le Cuirot]

commit:     2307172a14e00538f1f06a89d2e629cc42483dbb
Author:     James Le Cuirot <chewi <AT> gentoo <DOT> org>
AuthorDate: Sun Mar  6 12:55:18 2016 +0000
Commit:     James Le Cuirot <chewi <AT> gentoo <DOT> org>
CommitDate: Sun Mar  6 13:01:42 2016 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=2307172a

sci-biology/biojava: Remove outdated unmaintained package

 sci-biology/biojava/Manifest           |  2 -
 sci-biology/biojava/biojava-1.6.ebuild | 73 ----------------------------------
 sci-biology/biojava/biojava-1.7.ebuild | 73 ----------------------------------
 sci-biology/biojava/metadata.xml       | 12 ------
 4 files changed, 160 deletions(-)

diff --git a/sci-biology/biojava/Manifest b/sci-biology/biojava/Manifest
deleted file mode 100644
index 3a20f1c..0000000
--- a/sci-biology/biojava/Manifest
+++ /dev/null
@@ -1,2 +0,0 @@
-DIST biojava-1.6-all.jar 24571007 SHA256 2d10334fe6022d1b64219505ba4d2a32027ab7218d775878506d3e7c00f6ce7e SHA512 300bd6e02fe052c810c52cb2cc4255628bee704af187ad746b97e57941778dc3a1996b3917db021d74db8c716f94c90c94c5a5e2d4bc212c06259381045f3034 WHIRLPOOL e5a52aaa6e9a9d6780d5f55b6d164db07388e9c595296d4e4a11dc241aa0745fa726279d19a0c97d1966b0a14c06af2b9b588873ad522aeeff881534f0871f10
-DIST biojava-1.7-all.jar 28062592 SHA256 5c5e7fc66bc79a07494fb7d935164ec2aab50dc2effb7644f89bfa4fc907bb3f SHA512 867862b45f014bcd1afd37691e91b948ede05e96f84c7051953d32dad49908781235aad80301e22a15fa8b4145e80c78cf3935d6e581a2e60b56c9308f8adaa8 WHIRLPOOL 5669293ce362e82562454c5902d523e69f64d90e117e75b5de844e0ef5866d250507b86f78245ac82f19932ad9aa196ad17d96a3f703187a3ab2daf00893af9b

diff --git a/sci-biology/biojava/biojava-1.6.ebuild b/sci-biology/biojava/biojava-1.6.ebuild
deleted file mode 100644
index edfadac..0000000
--- a/sci-biology/biojava/biojava-1.6.ebuild
+++ /dev/null
@@ -1,73 +0,0 @@
-# Copyright 1999-2015 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Id$
-
-# TODO:
-# -Fix javadoc generation OutOfMemoryError
-# -Add launchers for 2 apps in biojava-apps.jar
-# -Decide on demo packaging. (Whether to install its jar as done or sources by examples USE flag)
-
-EAPI=2
-
-#JAVA_PKG_IUSE="doc source test"
-JAVA_PKG_IUSE="source test"
-
-inherit eutils java-pkg-2 java-ant-2
-
-DESCRIPTION="A Java framework for processing biological data"
-HOMEPAGE="http://biojava.org"
-SRC_URI="http://www.biojava.org/download/bj16/all/${P}-all.jar"
-LICENSE="LGPL-2.1"
-SLOT="0"
-KEYWORDS="~amd64"
-IUSE=""
-
-COMMON_DEPEND="dev-java/jgrapht:0
-	dev-java/commons-cli:1
-	dev-java/commons-dbcp:0
-	dev-java/commons-pool:0
-	dev-java/bytecode:0"
-
-RDEPEND=">=virtual/jre-1.5
-	${COMMON_DEPEND}"
-DEPEND=">=virtual/jdk-1.5
-	app-arch/unzip
-	${COMMON_DEPEND}
-	test?
-	(
-		dev-java/junit:4
-		dev-java/ant-junit4
-	)"
-
-S="${WORKDIR}/biojava-live_${PV}"
-
-JAVA_ANT_IGNORE_SYSTEM_CLASSES="true"
-
-src_prepare() {
-	einfo "Removing budled jars."
-	find . -name "*.jar" -print -delete
-	rm -r doc/*
-	java-pkg_jar-from jgrapht jgrapht.jar jgrapht-jdk1.5.jar
-	java-pkg_jar-from commons-cli-1
-	java-pkg_jar-from commons-dbcp commons-dbcp.jar commons-dbcp-1.1.jar
-	java-pkg_jar-from commons-pool commons-pool.jar commons-pool-1.1.jar
-	java-pkg_jar-from bytecode
-}
-
-src_compile() {
-	#ANT_OPTS="${ANT_OPTS} -Xmx512m"
-	eant package-biojava package-biojava package-demos package-apps #$(use_doc javadocs-all)
-}
-
-src_install() {
-	java-pkg_newjar ant-build/biojava.jar ${PN}.jar
-	java-pkg_newjar ant-build/apps.jar ${PN}-apps.jar
-	java-pkg_newjar ant-build/demos.jar ${PN}-demos.jar
-	#use doc && java-pkg_dojavadoc ant-build/doc/{biojava,apps,demos}
-	use source && java-pkg_dosrc {src,apps,demos}/org
-}
-
-src_test() {
-	java-pkg_jar-from junit-4 junit.jar junit-4.4.jar
-	ANT_TASKS="ant-junit4" eant runtests
-}

diff --git a/sci-biology/biojava/biojava-1.7.ebuild b/sci-biology/biojava/biojava-1.7.ebuild
deleted file mode 100644
index 77ff74c..0000000
--- a/sci-biology/biojava/biojava-1.7.ebuild
+++ /dev/null
@@ -1,73 +0,0 @@
-# Copyright 1999-2015 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Id$
-
-# TODO:
-# -Fix javadoc generation OutOfMemoryError
-# -Add launchers for 2 apps in biojava-apps.jar
-# -Decide on demo packaging. (Whether to install its jar as done or sources by examples USE flag)
-
-EAPI=2
-
-#JAVA_PKG_IUSE="doc source test"
-JAVA_PKG_IUSE="source test"
-
-inherit eutils java-pkg-2 java-ant-2
-
-DESCRIPTION="A Java framework for processing biological data"
-HOMEPAGE="http://biojava.org"
-SRC_URI="http://www.biojava.org/download/bj17/all/${P}-all.jar"
-LICENSE="LGPL-2.1"
-SLOT="0"
-KEYWORDS="~amd64 ~x86"
-IUSE=""
-
-COMMON_DEPEND="dev-java/jgrapht:0
-	dev-java/commons-cli:1
-	dev-java/commons-dbcp:0
-	dev-java/commons-pool:0
-	dev-java/commons-collections:0
-	dev-java/bytecode:0"
-
-RDEPEND=">=virtual/jre-1.5
-	${COMMON_DEPEND}"
-DEPEND=">=virtual/jdk-1.5
-	app-arch/unzip
-	${COMMON_DEPEND}
-	test?
-	(
-		dev-java/junit:4
-		dev-java/ant-junit4
-	)"
-
-S="${WORKDIR}/biojava-${PV}"
-
-JAVA_ANT_IGNORE_SYSTEM_CLASSES="true"
-
-src_prepare() {
-	einfo "Removing bundled jars..."
-	find . -name "*.jar" -print -delete
-	java-pkg_jar-from jgrapht jgrapht.jar jgrapht-jdk1.5.jar
-	java-pkg_jar-from commons-cli-1
-	java-pkg_jar-from commons-dbcp commons-dbcp.jar commons-dbcp-1.1.jar
-	java-pkg_jar-from commons-pool commons-pool.jar commons-pool-1.1.jar
-	java-pkg_jar-from bytecode
-}
-
-src_compile() {
-	#ANT_OPTS="${ANT_OPTS} -Xmx512m"
-	eant package-biojava package-biojava package-demos package-apps #$(use_doc javadocs-all)
-}
-
-src_install() {
-	java-pkg_newjar ant-build/biojava.jar ${PN}.jar
-	java-pkg_newjar ant-build/apps.jar ${PN}-apps.jar
-	java-pkg_newjar ant-build/demos.jar ${PN}-demos.jar
-	#use doc && java-pkg_dojavadoc ant-build/doc/{biojava,apps,demos}
-	use source && java-pkg_dosrc {src,apps,demos}/org
-}
-
-src_test() {
-	java-pkg_jar-from junit-4 junit.jar junit-4.4.jar
-	ANT_TASKS="ant-junit4" eant runtests
-}

diff --git a/sci-biology/biojava/metadata.xml b/sci-biology/biojava/metadata.xml
deleted file mode 100644
index 15eb934..0000000
--- a/sci-biology/biojava/metadata.xml
+++ /dev/null
@@ -1,12 +0,0 @@
-<?xml version="1.0" encoding="UTF-8"?>
-<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
-<pkgmetadata>
-	<maintainer type="project">
-		<email>sci-biology@g.o</email>
-		<name>Gentoo Biology Project</name>
-	</maintainer>
-<maintainer type="project">
-		<email>java@g.o</email>
-		<name>Java</name>
-	</maintainer>
-</pkgmetadata>